Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 197 of 211
Found at i:58037219 original size:51 final size:51
Alignment explanation
Indices: 58037160--58037259 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
58037150 CTAAATTTCC
*
58037160 TCTCAATTTGCTCTTAA-ATCC-CTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAGATCCTCTT--AAATTTCTCTCAAATCCATATTTAA
* * *
58037211 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAGATCCTCTTAAATTTCTCTCAAATCCATATTT
58037260 TTAAATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 37 0.86
52 3 0.07
53 3 0.07
ACGTcount: A:0.26, C:0.27, G:0.03, T:0.44
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAGATCCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:58039083 original size:18 final size:18
Alignment explanation
Indices: 58039056--58039095 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
58039046 CAGGTGCGTT
* *
58039056 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
58039074 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
58039092 TCCT
1 TCCT
58039096 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:58039617 original size:7 final size:8
Alignment explanation
Indices: 58039587--58039615 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
58039577 AACTAATTTA
58039587 TTATAAAT
1 TTATAAAT
58039595 TTATAAAT
1 TTATAAAT
58039603 TTAT-AAT
1 TTATAAAT
58039610 TTATAA
1 TTATAA
58039616 TTAAATGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTATAAAT
Found at i:58039672 original size:21 final size:21
Alignment explanation
Indices: 58039667--58040684 Score: 555
Period size: 21 Copynumber: 48.0 Consensus size: 21
58039657 TAAAAACCCT
58039667 AACCCTAA-CCTTAAACTTAAA
1 AACCCTAACCCTT-AACTTAAA
* *
58039688 AACCCTAAATCATTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
58039710 AACCATAAACCCTTGACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
58039732 AACCCTAACCCTCAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
58039753 AACTCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
58039774 AACCCTAAACTTTAAAATCTT-AA
1 AACCCTAACCCTT--AA-CTTAAA
58039797 AACCCTAAACCCTTAACTT-AA
1 AACCCT-AACCCTTAACTTAAA
* ** ** *
58039818 AGCTTTAAACTTTTAATTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
58039840 AACCCTAAACCTTTAAATTTAA
1 AACCCT-AACCCTTAACTTAAA
* *
58039862 AACCTTAA-----AACCCT-AA
1 AACCCTAACCCTTAA-CTTAAA
** * *
58039878 AACCCTAAATTCATAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
58039900 AACCTTAACCCTTAACGTAAA
1 AACCCTAACCCTTAACTTAAA
*
58039921 AACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
**
58039943 AACTTTAA-----AACCTT-AA
1 AACCCTAACCCTTAA-CTTAAA
** *
58039959 AACCCTAAACTTTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
58039981 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
58040002 AACCATAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
58040024 AATCGTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
58040046 AACCATAA-----ACCTT-AA
1 AACCCTAACCCTTAACTTAAA
* *
58040061 AACCCTAAACCTTTTACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
58040083 AACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*** * *
58040105 AATTGTAACACTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
58040126 AACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*** *
58040148 AATTGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * * *
58040169 AGCACTAACCTTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
58040190 AACCCTAAACTCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
***
58040212 AATTGTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
58040233 AGCCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
58040254 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
** * *
58040276 AACTGTAAACCGTTAAATT-AA
1 AACCCT-AACCCTTAACTTAAA
* *
58040297 AACTCTAAAACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTT--A-----A-CTTAAA
** *
58040327 AACTATAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
58040348 AGCACTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
58040369 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*** *
58040391 AATTGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * * *
58040412 AGCCATAACCATTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
58040433 AACACTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*** * *
58040455 AATTATAAACCCTTAAATTAAT
1 AACCCT-AACCCTTAACTTAAA
* *
58040477 AACCTTAA-----AACCT-AA
1 AACCCTAACCCTTAACTTAAA
*
58040492 AACCCTAAACCCTTATCTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
58040514 AACCATAAACCTTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
58040536 AACCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
58040557 AACCATATACCCTTAACTTAAA
1 AACCCTA-ACCCTTAACTTAAA
* * *
58040579 AATCGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
58040600 TACCATAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
58040622 AATCATAACCCTTAA-ATAAA
1 AACCCTAACCCTTAACTTAAA
*
58040642 AACCCCTAACACTTAACTTAAA
1 AA-CCCTAACCCTTAACTTAAA
58040664 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
58040685 TATAATTTGA
Statistics
Matches: 764, Mismatches: 176, Indels: 114
0.72 0.17 0.11
Matches are distributed among these distances:
15 13 0.02
16 27 0.04
17 7 0.01
20 5 0.01
21 338 0.44
22 335 0.44
23 14 0.02
24 8 0.01
27 1 0.00
28 1 0.00
29 8 0.01
30 7 0.01
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:58039708 original size:22 final size:22
Alignment explanation
Indices: 58039638--58040684 Score: 660
Period size: 22 Copynumber: 49.0 Consensus size: 22
58039628 TTTAATTGAC
* *
58039638 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
*
58039660 AAACCCTAACCCTAACCTTAAACTTAA
1 AAACCCTAA----ACCCTT-AACTTAA
* *
58039687 AAACCCTAAATCATTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
58039709 AAACCATAAACCCTTGACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
58039731 AAACCCT-AACCCTCAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
58039752 AAACTCT-AACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
58039773 AAACCCTAAA-CTTTAAAATCTT-A
1 AAACCCTAAACCCTT--AA-CTTAA
58039796 AAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
* ** ** *
58039817 AAGCTTTAAACTTTTAATTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
58039839 AAACCCTAAACCTTTAAATTTA
1 AAACCCTAAACCCTTAACTTAA
* *
58039861 AAACCTTAAAACC----C-T-A
1 AAACCCTAAACCCTTAACTTAA
** * *
58039877 AAACCCTAAATTCATAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* *
58039899 AAA-CCTTAACCCTTAACGTAA
1 AAACCCTAAACCCTTAACTTAA
*
58039920 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
** *
58039942 AAACTTTAAA-----ACCTT-A
1 AAACCCTAAACCCTTAACTTAA
** *
58039958 AAACCCTAAACTTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
58039980 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
58040001 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
58040023 AAATCGTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
58040045 AAACCATAAA--C----CTT-A
1 AAACCCTAAACCCTTAACTTAA
* *
58040060 AAACCCTAAACCTTTTACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
58040082 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*** * *
58040104 AAATTGT-AACACTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
58040125 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*** *
58040147 AAATTGT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* * * *
58040168 AAGCACT-AACCTTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
58040189 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
***
58040211 AAATTGT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
58040232 AAGCCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
58040253 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
** * *
58040275 AAACTGTAAACCGTTAAATT-A
1 AAACCCTAAACCCTTAACTTAA
* *
58040296 AAACTCTAAAACCTTAAACCCTTAA
1 AAACCCTAAACCCTT-AA--CTTAA
** *
58040321 CTTAAAAACTATAACCCTTAAATTAA
1 ---AAACCCTA-AACCCTTAACTTAA
* *
58040347 AAGCACT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
58040368 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*** *
58040390 AAATTGT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* * * *
58040411 AAGCCAT-AACCATTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
58040432 AAACACTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*** *
58040454 AAATTATAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
58040476 TAA-CCTTAA-----AACCT-A
1 AAACCCTAAACCCTTAACTTAA
*
58040491 AAACCCTAAACCCTTATCTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
58040513 AAACCATAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
58040535 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
58040556 AAACCATATACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
58040578 AAATCGT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
58040599 ATACCATAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* * *
58040621 AAATCAT-AACCCTTAA-ATAA
1 AAACCCTAAACCCTTAACTTAA
*
58040641 AAACCCCT-AACACTTAACTTAA
1 AAA-CCCTAAACCCTTAACTTAA
58040663 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
58040684 A
1 A
58040685 TATAATTTGA
Statistics
Matches: 787, Mismatches: 182, Indels: 113
0.73 0.17 0.10
Matches are distributed among these distances:
15 13 0.02
16 30 0.04
17 4 0.01
20 6 0.01
21 317 0.40
22 348 0.44
23 22 0.03
24 8 0.01
25 1 0.00
26 9 0.01
27 15 0.02
28 8 0.01
29 6 0.01
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.27
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:58039899 original size:81 final size:80
Alignment explanation
Indices: 58039780--58040025 Score: 278
Period size: 81 Copynumber: 3.0 Consensus size: 80
58039770 TAAAAACCCT
* ** * * * ** **
58039780 AAACTTTAAAATCTTAAAACCCTAAACCCTTAACTTAAAGCTTTAAACTTTTAATTTAAAAACCC
1 AAACTTTAAAACCTTAAAACCCTAAATTCTTAAATTAAAACCTT-AACCCTTAACGTAAAAACCC
* *
58039845 TAAACCTTTAAATTTA
65 TAAACCCTTAAATTAA
* * *
58039861 AAACCTTAAAACCCTAAAACCCTAAATTCATAAATTAAAAACCTTAACCCTTAACGTAAAAACCC
1 AAACTTTAAAACCTTAAAACCCTAAATTCTTAAATT-AAAACCTTAACCCTTAACGTAAAAACCC
58039926 TAAACCCTTAAATTAA
65 TAAACCCTTAAATTAA
* *
58039942 AAACTTTAAAACCTTAAAACCCTAAACTT-TTAAATTAAAAACCCTAACCCTTAACTTAAAAACC
1 AAACTTTAAAACCTTAAAACCCTAAA-TTCTTAAATT-AAAACCTTAACCCTTAACGTAAAAACC
* *
58040006 ATAAACCCTTAACTTAA
64 CTAAACCCTTAAATTAA
58040023 AAA
1 AAA
58040026 TCGTAAACCC
Statistics
Matches: 141, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
81 133 0.94
82 8 0.06
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (80 bp):
AAACTTTAAAACCTTAAAACCCTAAATTCTTAAATTAAAACCTTAACCCTTAACGTAAAAACCCT
AAACCCTTAAATTAA
Found at i:58040011 original size:43 final size:43
Alignment explanation
Indices: 58039895--58040684 Score: 540
Period size: 43 Copynumber: 18.6 Consensus size: 43
58039885 AATTCATAAA
* * * *
58039895 TTAAAAACCTTAACCCTTAACGTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
** * ** *
58039938 TTAAAAACTTTAA-----AACCTT-AAAACCCTAAACTTTTAAA
1 TTAAAAACCCTAACCCTTAA-CTTAAAAACCATAAACCCTTAAC
58039976 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
* * *
58040019 TTAAAAATCGTAAACCCTTAAATTAAAAACCATAAA--C----C
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
* * *
58040057 TT-AAAACCCTAAACCTTTTACTTAAAAACCTTAAACCCTTAAC
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
*** * * *
58040100 TTAAAAATTGTAACACTTAACTTTAAAACCTTAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
*** * * *
58040143 TTAAAAATTGTAACCCTTAAATT-AAAAGCACT-AACCTTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCA-TAAACCCTTAAC
* * ***
58040185 TTTAAAACCCTAAACTCTTAACTTAAAAATTGT-AACCCTTAAC
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
* * *
58040228 TTAAAAGCCCTAACCCTTAACTTTAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
** * * *
58040271 TTAAAAACTGTAAACCGTTAAATTAAAACTCTAAAACCTTAAACCCTTAAC
1 TTAAAAACCCT-AACCCTTAACTT---A----AAAACCATAAACCCTTAAC
** * *
58040322 TTAAAAACTATAACCCTTAAATT-AAAAGCACT-AACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCA-TAAACCCTTAAC
*** *
58040364 TTAAAAACCCTAAACCCTTAACTTAAAAATTGT-AACCCTTAAA
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
* * * *
58040407 TTAAAAGCCATAACCATTAACTTTAAAA-CACTAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCA-TAAACCCTTAAC
*** * * *
58040450 TTAAAAATTATAAACCCTTAAATTAATAACC-TTAA-----AAC
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
* * *
58040488 CT-AAAACCCTAAACCCTTATCTTAAAAACCATAAACCTTTAAC
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
* *
58040531 TTAAAAACCCTAACCCTTAACTTTAAAACCATATACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
* * * *
58040574 TTAAAAATCGTAACCCTTAAATTAAATACCATAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
* * * * * *
58040617 TTTAAAATCATAACCCTTAA-ATAAAAACCCCT-AACACTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAA-CCATAAACCCTTAAC
58040659 TTAAAAACCCTAACCCTTAACTTAAA
1 TTAAAAACCCTAACCCTTAACTTAAA
58040685 TATAATTTGA
Statistics
Matches: 594, Mismatches: 110, Indels: 86
0.75 0.14 0.11
Matches are distributed among these distances:
37 49 0.08
38 40 0.07
39 3 0.01
42 112 0.19
43 283 0.48
44 67 0.11
45 1 0.00
50 11 0.02
51 28 0.05
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.28
Consensus pattern (43 bp):
TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
Found at i:58040038 original size:81 final size:81
Alignment explanation
Indices: 58039830--58040112 Score: 272
Period size: 81 Copynumber: 3.5 Consensus size: 81
58039820 CTTTAAACTT
* * * * *
58039830 TTAATTTAAAAACCCTAAACCTTTAAATTTAAAACCTTAAAACCC-TAAAACCCTAAA-TTCATA
1 TTAACTTAAAAACCCTAAACCCTTAAATTAAAAATCGT-AAACCCTTAAAACCCTAAACTT-ATA
*
58039893 AATTAAAAACCTTAACCC
64 AATTAAAAACCCTAACCC
* * * *
58039911 TTAACGTAAAAACCCTAAACCCTTAAATTAAAAA-CTTTAAAACCTTAAAACCCTAAACTTTTAA
1 TTAACTTAAAAACCCTAAACCCTTAAATTAAAAATC-GTAAACCCTTAAAACCCTAAACTTATAA
58039975 ATTAAAAACCCTAACCC
65 ATTAAAAACCCTAACCC
* * **** *
58039992 TTAACTTAAAAACCATAAACCCTTAACTTAAAAATCGTAAACCCTT-AAATTAAAAAC-CATAAA
1 TTAACTTAAAAACCCTAAACCCTTAAATTAAAAATCGTAAACCCTTAAAACCCTAAACTTATAAA
*
58040055 CCTT-AAAACCCTAAACCT
66 --TTAAAAACCCT-AACCC
* * * *
58040073 TTTACTTAAAAACCTTAAACCCTTAACTTAAAAATTGTAA
1 TTAACTTAAAAACCCTAAACCCTTAAATTAAAAATCGTAA
58040113 CACTTAACTT
Statistics
Matches: 173, Mismatches: 22, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
79 4 0.02
80 21 0.12
81 145 0.84
82 3 0.02
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (81 bp):
TTAACTTAAAAACCCTAAACCCTTAAATTAAAAATCGTAAACCCTTAAAACCCTAAACTTATAAA
TTAAAAACCCTAACCC
Found at i:58040062 original size:15 final size:15
Alignment explanation
Indices: 58040044--58040073 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58040034 CCTTAAATTA
58040044 AAAACCATAAACCTT
1 AAAACCATAAACCTT
*
58040059 AAAACCCTAAACCTT
1 AAAACCATAAACCTT
58040074 TTACTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAACCATAAACCTT
Found at i:58040187 original size:64 final size:64
Alignment explanation
Indices: 58039971--58040684 Score: 367
Period size: 64 Copynumber: 11.2 Consensus size: 64
58039961 CCCTAAACTT
* * * *
58039971 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAAAATCGTAAACCC
1 TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGT-AACCC
* * * * *
58040036 TTAAATTAAAAAC-C--A---TAAACCTTAAAACCCTAAACCTTTTACTTAAAAACCTT-AAACC
1 TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAA--TTGTAACC
58040094 C
64 C
* *** * *
58040095 TTAACTTAAAAATTGTAACACTTAACTTTAAAACCTTAAACCCTTAACTTAAAAATTGTAACCC
1 TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGTAACCC
* * *
58040159 TTAAATTAAAAGCACTAACCTTTAACTTTAAAACCCTAAACTCTTAACTTAAAAATTGTAACCC
1 TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGTAACCC
* * * * *
58040223 TTAACTTAAAAGCCCTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACTGTAAACCG
1 TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGT-AACCC
* * * **
58040288 TTAAATTAAAACTCTAAAACCTTAAACCCTTAAC-TTAAAA-ACTATAACCCTTAAATTAAAAGC
1 TTAAATT-AAA----AACA-C-T-AACCCTTAACTTTAAAACCCTA-AACCCTTAACTTAAAAAT
**
58040351 ACTAACCC
57 TGTAACCC
* * * *** * **** *
58040359 TTAACTTAAAAACCCTAAACCCTTAACTTAAAAATTGT-AACCCTTAAATTAAAAGCCATAACCA
1 TTAAATTAAAAACACT-AACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGTAACCC
* * * *** *
58040423 TTAACTTTAAAACACTAAACCCTTAACTTAAAAATTATAAACCCTTAAATT---AA---TAA-CC
1 TTAAATTAAAAACACT-AACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGTAACCC
* * * * * * ***
58040481 TTAAAACCT-AAAACCCTAAACCCTTATCTTAAAAACCATAAACCTTTAACTTAAAAACCCTAAC
1 TT-AAA-TTAAAAACACT-AACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGTAAC
58040545 CC
63 CC
* * * * * * * ***
58040547 TTAACTTTAAAAC-CATATACCCTTAACTTAAAAATCGT-AACCCTTAAATTAAATACCATAAAC
1 TTAAATTAAAAACAC-TA-ACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGT-AAC
58040610 CC
63 CC
* * * * * ***
58040612 TTAACTTTAAAATCA-TAACCCTTAA-ATAAAAACCCCT-AACACTTAACTTAAAAACCCTAACC
1 TTAA-ATTAAAAACACTAACCCTTAACTTTAAAA-CCCTAAACCCTTAACTTAAAAATTGTAACC
58040674 C
64 C
*
58040675 TTAACTTAAA
1 TTAAATTAAA
58040685 TATAATTTGA
Statistics
Matches: 527, Mismatches: 84, Indels: 79
0.76 0.12 0.11
Matches are distributed among these distances:
58 3 0.01
59 86 0.16
60 1 0.00
61 1 0.00
62 10 0.02
63 17 0.03
64 232 0.44
65 109 0.21
66 16 0.03
70 4 0.01
71 14 0.03
72 24 0.05
73 10 0.02
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.28
Consensus pattern (64 bp):
TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGTAACCC
Found at i:58040300 original size:29 final size:29
Alignment explanation
Indices: 58040268--58040327 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
58040258 CTAAACCCTT
*
58040268 AACT-TAAAAACTGTAAACCGTTAAATTAA
1 AACTCTAAAAACT-TAAACCCTTAAATTAA
* *
58040297 AACTCTAAAACCTTAAACCCTTAACTTAA
1 AACTCTAAAAACTTAAACCCTTAAATTAA
58040326 AA
1 AA
58040328 ACTATAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.27
Consensus pattern (29 bp):
AACTCTAAAAACTTAAACCCTTAAATTAA
Found at i:58040314 original size:51 final size:50
Alignment explanation
Indices: 58040246--58040348 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 50
58040236 CCTAACCCTT
* * *
58040246 AACTTTAAAACCCTAAACCCTTAACTTAAAAACTGTAAACCGTTAAATTAA
1 AACTCTAAAACCCTAAACCCTTAACTTAAAAACTAT-AACCCTTAAATTAA
*
58040297 AACTCTAAAACCTTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAA
1 AACTCTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAA
58040347 AA
1 AA
58040349 GCACTAACCC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 15 0.31
51 33 0.69
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (50 bp):
AACTCTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAA
Found at i:58040321 original size:115 final size:114
Alignment explanation
Indices: 58040182--58040412 Score: 363
Period size: 115 Copynumber: 2.0 Consensus size: 114
58040172 ACTAACCTTT
* * * * * *
58040182 AACTTTAAAACCCTAAACTCTTAACTTAAAAATTGTAACCCTTAACTTAAAAGCCCTAACCCTTA
1 AACTCTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCACTAACCCTTA
* *
58040247 ACTTTAAAACCCTAAACCCTTAACTTAAAAACTGTAAACCGTTAAATTAA
66 ACTTAAAAACCCTAAACCCTTAACTTAAAAACTGT-AACCCTTAAATTAA
*
58040297 AACTCTAAAACCTTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCACTAACCCTTA
1 AACTCTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCACTAACCCTTA
*
58040362 ACTTAAAAACCCTAAACCCTTAACTTAAAAATTGTAACCCTTAAATTAA
66 ACTTAAAAACCCTAAACCCTTAACTTAAAAACTGTAACCCTTAAATTAA
58040411 AA
1 AA
58040413 GCCATAACCA
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
114 15 0.14
115 91 0.86
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.28
Consensus pattern (114 bp):
AACTCTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCACTAACCCTTA
ACTTAAAAACCCTAAACCCTTAACTTAAAAACTGTAACCCTTAAATTAA
Found at i:58040339 original size:29 final size:29
Alignment explanation
Indices: 58040268--58040342 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
58040258 CTAAACCCTT
* *
58040268 AACT-TAAAAACTGTAAACCGTTAAATTAA
1 AACTATAAAACCT-TAAACCCTTAAATTAA
* *
58040297 AACTCTAAAACCTTAAACCCTTAACTTAAA
1 AACTATAAAACCTTAAACCCTTAAATT-AA
*
58040327 AACTAT-AACCCTTAAA
1 AACTATAAAACCTTAAA
58040343 TTAAAAGCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 25 0.64
30 14 0.36
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.27
Consensus pattern (29 bp):
AACTATAAAACCTTAAACCCTTAAATTAA
Found at i:58044283 original size:127 final size:125
Alignment explanation
Indices: 58043853--58044407 Score: 735
Period size: 126 Copynumber: 4.4 Consensus size: 125
58043843 CCCGAATATG
* *
58043853 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * *
58043918 TAGAAGCA-ATTTTATACAATTTGCTCAGAAACGT---CTCAAAATTATTTTTCCAGGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * *
58043974 CTACTGTAGCAAAAGCGTGTCCATGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCTTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* *
58044038 CTT-ACAGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGA-AGCATT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * *
58044100 CTACTGTAGCAAAAGCACGTCCATGTGGGTGCGATTTCACAAACTCTTCTCATAAAGCATCCCGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
58044165 TTGAAGCGATTTTTTAAACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGC-ATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * * *
58044227 CAACTGTAGCAAAAGTGCATCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
58044292 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * * *
58044352 CTACTGTAGCAAAAGCGCGTACACGTGAGCGCGACTTCAAAAATCCTTCTGATAAA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAA
58044408 TCATACTACT
Statistics
Matches: 379, Mismatches: 44, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
120 2 0.01
121 63 0.17
123 24 0.06
125 54 0.14
126 160 0.42
127 76 0.20
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:58044555 original size:10 final size:9
Alignment explanation
Indices: 58044541--58044570 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
58044531 CCAAAAACCT
58044541 TAAAAATCC
1 TAAAAATCC
*
58044550 TAAAAACCC
1 TAAAAATCC
58044559 TAAAAATCC
1 TAAAAATCC
58044568 TAA
1 TAA
58044571 CCTGAGAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (9 bp):
TAAAAATCC
Found at i:58044556 original size:18 final size:18
Alignment explanation
Indices: 58044533--58044570 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
58044523 CTTTTTCCCC
*
58044533 AAAAACCTTAAAAATCCT
1 AAAAACCCTAAAAATCCT
58044551 AAAAACCCTAAAAATCCT
1 AAAAACCCTAAAAATCCT
58044569 AA
1 AA
58044571 CCTGAGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAACCCTAAAAATCCT
Found at i:58051087 original size:20 final size:20
Alignment explanation
Indices: 58051062--58051100 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
58051052 TAAATTTCTA
*
58051062 ATATAAAATATTCATCAATT
1 ATATAAAATACTCATCAATT
58051082 ATATAAAATACTCATCAAT
1 ATATAAAATACTCATCAAT
58051101 AAACTTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAAAATACTCATCAATT
Found at i:58056546 original size:16 final size:16
Alignment explanation
Indices: 58056525--58056562 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
58056515 TGAGAATATG
58056525 ATTTACTCAAAAACTA
1 ATTTACTCAAAAACTA
58056541 ATTTACTCAAAAACTA
1 ATTTACTCAAAAACTA
58056557 ATTTAC
1 ATTTAC
58056563 GTGAAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTTACTCAAAAACTA
Found at i:58068006 original size:5 final size:5
Alignment explanation
Indices: 58067996--58068023 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
58067986 AGTGCCAGTG
58067996 CCAGC CCAGC CCAGC CCAGC CCAGC CCA
1 CCAGC CCAGC CCAGC CCAGC CCAGC CCA
58068024 AGGTCCATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.61, G:0.18, T:0.00
Consensus pattern (5 bp):
CCAGC
Found at i:58070562 original size:9 final size:9
Alignment explanation
Indices: 58070538--58070576 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
58070528 TGAATTTTAC
*
58070538 AATTCGAAT
1 AATTCAAAT
*
58070547 AACTCAAAT
1 AATTCAAAT
*
58070556 AGTTCAAAT
1 AATTCAAAT
58070565 AATTCAAAT
1 AATTCAAAT
58070574 AAT
1 AAT
58070577 ATGTTGTTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (9 bp):
AATTCAAAT
Found at i:58071835 original size:66 final size:66
Alignment explanation
Indices: 58071729--58071880 Score: 205
Period size: 66 Copynumber: 2.3 Consensus size: 66
58071719 TACACATCCT
* * *
58071729 ACCGTTGTTTTTAATCTCACTGTTATAGTATCCTATCTCATCGTTACAGTAATCAATCTCACCAT
1 ACCGTTGTTTTTAATCTCACTGTTACAGTATCCTATCTCATCGCTACAGTAACCAATCTCACCAT
58071794 C
66 C
* * * * *
58071795 ACCGTTGTTTTTAATCTCATTGTTCCAGTATTCTATCTCATCGCTACAGTAACCAATCTTACCGT
1 ACCGTTGTTTTTAATCTCACTGTTACAGTATCCTATCTCATCGCTACAGTAACCAATCTCACCAT
58071860 C
66 C
* * *
58071861 ACTGTTATTTTTAACCTCAC
1 ACCGTTGTTTTTAATCTCAC
58071881 CGAAGGCAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.40
Consensus pattern (66 bp):
ACCGTTGTTTTTAATCTCACTGTTACAGTATCCTATCTCATCGCTACAGTAACCAATCTCACCAT
C
Found at i:58072267 original size:16 final size:17
Alignment explanation
Indices: 58072239--58072284 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
58072229 ATTGTGGTAA
58072239 AAAAATACTTTTTGATT
1 AAAAATACTTTTTGATT
58072256 AAAAATACTTTTTGATT
1 AAAAATACTTTTTGATT
*
58072273 AAAAATGCTTTT
1 AAAAATACTTTT
58072285 CCACCGCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (17 bp):
AAAAATACTTTTTGATT
Found at i:58073502 original size:12 final size:13
Alignment explanation
Indices: 58073487--58073516 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
58073477 AAGTTCGCCA
58073487 AAAGAGTTT-AGT
1 AAAGAGTTTCAGT
58073499 AAAGAGTTTCAGT
1 AAAGAGTTTCAGT
58073512 AAAGA
1 AAAGA
58073517 TCAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.23, T:0.27
Consensus pattern (13 bp):
AAAGAGTTTCAGT
Found at i:58073663 original size:27 final size:27
Alignment explanation
Indices: 58073608--58073663 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
58073598 TTCGCTGGTT
** *
58073608 AAGTTGGGAAATGGGGGTTTGCCAGTC
1 AAGTTGGGAAATGGGGGTTCACCAATC
* *
58073635 AAGTTGTGAACTGGGGGTTCACCAATC
1 AAGTTGGGAAATGGGGGTTCACCAATC
58073662 AA
1 AA
58073664 ATTCAAAGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (27 bp):
AAGTTGGGAAATGGGGGTTCACCAATC
Found at i:58085765 original size:12 final size:12
Alignment explanation
Indices: 58085748--58085772 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58085738 TAAAAAGACC
58085748 TCACAATATTAA
1 TCACAATATTAA
58085760 TCACAATATTAA
1 TCACAATATTAA
58085772 T
1 T
58085773 GTTTTTTCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TCACAATATTAA
Found at i:58085872 original size:20 final size:22
Alignment explanation
Indices: 58085847--58085887 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
58085837 GCATTCTATC
58085847 AATTTAG-TCACGAT-TTAAAA
1 AATTTAGCTCACGATATTAAAA
*
58085867 AATTTAGCTTACGATATTAAA
1 AATTTAGCTCACGATATTAAA
58085888 TGTTAGGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (22 bp):
AATTTAGCTCACGATATTAAAA
Found at i:58102275 original size:3 final size:3
Alignment explanation
Indices: 58102262--58102305 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
58102252 GCGTATATAT
*
58102262 ATA AGTA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
58102306 AAGATGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:58105582 original size:41 final size:41
Alignment explanation
Indices: 58105408--58105569 Score: 254
Period size: 41 Copynumber: 4.0 Consensus size: 41
58105398 TTATAGTTTA
* * * *
58105408 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-G
*
58105449 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
*
58105490 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
58105531 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
58105570 TGGATAATTT
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 112 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
Found at i:58110943 original size:46 final size:46
Alignment explanation
Indices: 58110876--58111107 Score: 383
Period size: 46 Copynumber: 5.0 Consensus size: 46
58110866 ACAATGCTTT
* * *
58110876 AACTCAGTATGGTTTCCTTCACTAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
58110922 AACTCAGTATGATTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
58110968 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
58111014 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* **
58111060 AACTCAGTATGGTTTTCTTCACCGAAGTACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
58111106 AA
1 AA
58111108 TTTACCATAG
Statistics
Matches: 174, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 174 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:58111875 original size:17 final size:17
Alignment explanation
Indices: 58111853--58111885 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58111843 AATTCTTTTT
58111853 AAATCACAAAATTCACA
1 AAATCACAAAATTCACA
*
58111870 AAATCACAGAATTCAC
1 AAATCACAAAATTCAC
58111886 TAATTCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.24, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATCACAAAATTCACA
Found at i:58116715 original size:14 final size:14
Alignment explanation
Indices: 58116696--58116735 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
58116686 TATCACATTT
58116696 TATATTAAAAAAAA
1 TATATTAAAAAAAA
* *
58116710 TATATTTATAAAAA
1 TATATTAAAAAAAA
58116724 TATATTAAAAAA
1 TATATTAAAAAA
58116736 GATTATTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TATATTAAAAAAAA
Found at i:58117103 original size:44 final size:44
Alignment explanation
Indices: 58117031--58117118 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
58117021 TCGTAAATAA
* *
58117031 GTAATTGAGTTTGAAATTGGATAGGAGACTCAAAACTTACTTTT
1 GTAATTGAGTTTGAAATTGGATACGAGACTCAAAACTTAATTTT
58117075 GTAATTGAGTTTGAAATTAGG-TACGAGACTCAAAACTTAATTTT
1 GTAATTGAGTTTGAAATT-GGATACGAGACTCAAAACTTAATTTT
58117119 CACGAGGTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.36
Consensus pattern (44 bp):
GTAATTGAGTTTGAAATTGGATACGAGACTCAAAACTTAATTTT
Found at i:58119263 original size:17 final size:17
Alignment explanation
Indices: 58119241--58119304 Score: 76
Period size: 17 Copynumber: 3.6 Consensus size: 17
58119231 AATCTTAGAG
58119241 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
58119258 TTCTAATTGTAT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
58119277 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
58119294 TTTTAATTGTA
1 TTCTAATTGTA
58119305 GCCCTTGATG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.03
17 22 0.55
18 4 0.10
19 12 0.30
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:58119279 original size:36 final size:36
Alignment explanation
Indices: 58119232--58119304 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
58119222 TGATTATGTA
58119232 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
1 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
*
58119268 ATCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
58119304 A
1 A
58119305 GCCCTTGATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (36 bp):
ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
Found at i:58119282 original size:19 final size:19
Alignment explanation
Indices: 58119232--58119288 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
58119222 TGATTATGTA
58119232 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
58119251 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
58119268 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
58119287 AT
1 AT
58119289 ACAGCTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
18 4 0.12
19 14 0.44
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:58124373 original size:17 final size:17
Alignment explanation
Indices: 58124351--58124411 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
58124341 AATCTTAGAG
58124351 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
58124368 TTCTAATTGTAT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
58124387 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
58124404 TTTTAATT
1 TTCTAATT
58124412 ATAGCCCTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.03
17 19 0.51
18 4 0.11
19 12 0.32
20 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:58124389 original size:36 final size:36
Alignment explanation
Indices: 58124342--58124411 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
58124332 TGATTATGTA
58124342 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
1 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
*
58124378 ATCTTAGAGTTCTAATTGTATACAGCTTTTAATT
1 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATT
58124412 ATAGCCCTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (36 bp):
ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
Found at i:58124392 original size:19 final size:19
Alignment explanation
Indices: 58124342--58124398 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
58124332 TGATTATGTA
58124342 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
58124361 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
58124378 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
58124397 AT
1 AT
58124399 ACAGCTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
18 4 0.12
19 14 0.44
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:58124679 original size:49 final size:48
Alignment explanation
Indices: 58124607--58124703 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 48
58124597 TGAGGGAATT
* * *
58124607 CTGTTGAATCCTTTATCATTGCGAGATTAAGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCGTTATCATTGCGAG-TTAAGATGACTTAGGCGTTTTTA
*
58124656 CTGTTGAATCCGTTATCATTGCGAGTTAGGATGACTTAGGCGTTTTTA
1 CTGTTGAATCCGTTATCATTGCGAGTTAAGATGACTTAGGCGTTTTTA
58124704 AGCAAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 20 0.45
49 24 0.55
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCGTTATCATTGCGAGTTAAGATGACTTAGGCGTTTTTA
Found at i:58128585 original size:41 final size:41
Alignment explanation
Indices: 58128540--58128635 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
58128530 TTGATCTCGG
* * *
58128540 TTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTAA
1 TTTCGCACACTTAGTGCCCATTATTCAACATCATCATTTAA
* *
58128581 TTTCGCACACTTAGTGCTCATTATTCAACCTCATCATTTAA
1 TTTCGCACACTTAGTGCCCATTATTCAACATCATCATTTAA
58128622 -TTCGCACACTTAGT
1 TTTCGCACACTTAGT
58128636 TCTAATCATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 14 0.28
41 36 0.72
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (41 bp):
TTTCGCACACTTAGTGCCCATTATTCAACATCATCATTTAA
Found at i:58131673 original size:20 final size:19
Alignment explanation
Indices: 58131648--58131688 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
58131638 ATTCTGAAAA
**
58131648 TAATATTATTTTAATATATT
1 TAATATTAAATTAA-ATATT
58131668 TAATATTAAATTAAATATT
1 TAATATTAAATTAAATATT
58131687 TA
1 TA
58131689 TCTTTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATTAAATTAAATATT
Found at i:58131795 original size:61 final size:58
Alignment explanation
Indices: 58131730--58131845 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
58131720 AGTGATTATC
* * *
58131730 TTAATTTTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
*
58131791 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
58131846 TTGAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 1 0.02
61 27 0.53
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (58 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:58131858 original size:58 final size:60
Alignment explanation
Indices: 58131736--58131865 Score: 160
Period size: 58 Copynumber: 2.2 Consensus size: 60
58131726 TATCTTAATT
* * *
58131736 TTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAGATTTAATA
1 TTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA-ATTGAATA
*
58131797 TTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAAT-ATTGAAGTGA
1 TTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAATTGAA-T-A
*
58131855 TTAAGTTTAAT
1 TTAAATTTAAT
58131866 TATAGTTGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 32 0.52
59 1 0.02
60 1 0.02
61 22 0.35
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (60 bp):
TTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAATTGAATA
Found at i:58131932 original size:14 final size:14
Alignment explanation
Indices: 58131913--58131942 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
58131903 GTCATGGAAT
58131913 TTGTAGAGAGAAAA
1 TTGTAGAGAGAAAA
58131927 TTGTAGAGAGAAAA
1 TTGTAGAGAGAAAA
58131941 TT
1 TT
58131943 TTCTAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (14 bp):
TTGTAGAGAGAAAA
Found at i:58131969 original size:26 final size:25
Alignment explanation
Indices: 58131935--58131986 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
58131925 AATTGTAGAG
58131935 AGAAAATTTTCTAAAGA-AATTATTTT
1 AGAAAA-TTTCTAAAGATAATT-TTTT
* *
58131961 AGAAGATTTCTAGAGATAATTTTTT
1 AGAAAATTTCTAAAGATAATTTTTT
58131986 A
1 A
58131987 TTTAAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (25 bp):
AGAAAATTTCTAAAGATAATTTTTT
Found at i:58135492 original size:19 final size:20
Alignment explanation
Indices: 58135450--58135496 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
58135440 AAAAATACTA
58135450 AAAATAAAAGAAATATAACT
1 AAAATAAAAGAAATATAACT
* *
58135470 -AAATGAAAGAAATA-AATT
1 AAAATAAAAGAAATATAACT
58135488 AAAATAAAA
1 AAAATAAAA
58135497 TTAATATCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (20 bp):
AAAATAAAAGAAATATAACT
Found at i:58135536 original size:4 final size:4
Alignment explanation
Indices: 58135527--58135615 Score: 64
Period size: 4 Copynumber: 22.8 Consensus size: 4
58135517 TAATAAAACA
* * * *
58135527 AAAT AAAT AAAT AAAT -CAT CAAAC AAAT CAGT AAA- ATAAT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT A-AAT AAAT AAAT
58135574 -AAT ATAAT AAAT -AAT AAAT AAAT AAAT AAAT -AAT AAAAT AAA
1 AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA
58135616 GAAAAGGGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
3 15 0.22
4 44 0.66
5 8 0.12
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:58135582 original size:15 final size:15
Alignment explanation
Indices: 58135562--58135614 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
58135552 AATCAGTAAA
58135562 ATAATAATAAATAAT
1 ATAATAATAAATAAT
58135577 ATAATAA-ATAATAA-
1 ATAATAATA-AATAAT
58135591 ATAAATAAATAAATAAT
1 AT-AAT-AATAAATAAT
*
58135608 AAAATAA
1 ATAATAA
58135615 AGAAAAGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
14 3 0.09
15 17 0.53
16 10 0.31
17 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:58135586 original size:19 final size:19
Alignment explanation
Indices: 58135527--58135615 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 19
58135517 TAATAAAACA
*
58135527 AAATAAATAAATAAATCAT
1 AAATAAATAAATAAATAAT
* *
58135546 CAAACAAATCAGTAAAATAATAAT
1 -AAATAAAT-A--AATA-AATAAT
58135570 AAAT-AATATAATAAATAAT
1 AAATAAATA-AATAAATAAT
58135589 AAATAAATAAATAAATAAT
1 AAATAAATAAATAAATAAT
58135608 AAAATAAA
1 -AAATAAA
58135616 GAAAAGGGTA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
19 20 0.34
20 22 0.38
21 2 0.03
22 3 0.05
23 6 0.10
24 5 0.09
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (19 bp):
AAATAAATAAATAAATAAT
Found at i:58138841 original size:102 final size:102
Alignment explanation
Indices: 58138665--58138863 Score: 362
Period size: 102 Copynumber: 2.0 Consensus size: 102
58138655 AACTGTAGGC
*
58138665 GAATGGTGTCGTCAGTGACGCCATTAATTTTGAAATTATCATAGATTTCTAAAAAATTAGCCAAA
1 GAATGGTGTCGTCAGTGACGCCATTAATTTTGAAAGTATCATAGATTTCTAAAAAATTAGCCAAA
*
58138730 TGAGTATTTGGATCTTCGTCTTGCAAACCATCAAACT
66 TGAGTATTTGGATATTCGTCTTGCAAACCATCAAACT
* *
58138767 GAATGGTGTCGTCAGTGACGCCATTAATTTTGAAAGTATCGTAGATTTCTAAATAATTAGCCAAA
1 GAATGGTGTCGTCAGTGACGCCATTAATTTTGAAAGTATCATAGATTTCTAAAAAATTAGCCAAA
58138832 TGAGTATTTGGATATTCGTCTTGCAAACCATC
66 TGAGTATTTGGATATTCGTCTTGCAAACCATC
58138864 GAATTGAACA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (102 bp):
GAATGGTGTCGTCAGTGACGCCATTAATTTTGAAAGTATCATAGATTTCTAAAAAATTAGCCAAA
TGAGTATTTGGATATTCGTCTTGCAAACCATCAAACT
Found at i:58149982 original size:13 final size:13
Alignment explanation
Indices: 58149960--58149995 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
58149950 TATCTTATTA
*
58149960 ATTTTAAAAATTT
1 ATTTTCAAAATTT
58149973 ATTTTCAAAATTT
1 ATTTTCAAAATTT
*
58149986 ATTGTCAAAA
1 ATTTTCAAAA
58149996 CATCCCCGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (13 bp):
ATTTTCAAAATTT
Found at i:58160244 original size:61 final size:61
Alignment explanation
Indices: 58160148--58160271 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 61
58160138 CTCCACCTTA
* * ** * *
58160148 AAATTTTCTTTTACCAAATTTGGTTGGCTACCTTTAATACAATA-TGAAGTGTTCCGGTCGC
1 AAATTTTCTTTTACCAAAATTGGGTACCTACCTTTAATACAA-AGTGAAGTGGTCCGATCGC
* *
58160209 AAATTTTCTTTTACCAAAATTGGGTACCTAGCTTTAATATAAAGTGAAGTGGTCCGATCGC
1 AAATTTTCTTTTACCAAAATTGGGTACCTACCTTTAATACAAAGTGAAGTGGTCCGATCGC
58160270 AA
1 AA
58160272 GGTTCTTGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
60 1 0.02
61 53 0.98
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (61 bp):
AAATTTTCTTTTACCAAAATTGGGTACCTACCTTTAATACAAAGTGAAGTGGTCCGATCGC
Found at i:58171276 original size:23 final size:23
Alignment explanation
Indices: 58171250--58171299 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
58171240 ACAAATATGT
*
58171250 TAAATTT-AAATAATGATACATA
1 TAAATTTCAAATAATAATACATA
58171272 GTAAATTTCAAATAATAATACATA
1 -TAAATTTCAAATAATAATACATA
58171296 TAAA
1 TAAA
58171300 AACTTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (23 bp):
TAAATTTCAAATAATAATACATA
Found at i:58173222 original size:18 final size:18
Alignment explanation
Indices: 58173199--58173235 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
58173189 GTATAAATAC
58173199 GTATATATAAAATAT-AAG
1 GTATATA-AAAATATGAAG
58173217 GTATATAAAAATATGAAG
1 GTATATAAAAATATGAAG
58173235 G
1 G
58173236 ATAAAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (18 bp):
GTATATAAAAATATGAAG
Found at i:58175120 original size:45 final size:45
Alignment explanation
Indices: 58174975--58175332 Score: 244
Period size: 44 Copynumber: 8.0 Consensus size: 45
58174965 ATAAGACTTG
* * * *
58174975 TATCTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-GT
* * * *** * *
58175021 T-TCTTCGATCTACTTC-ACGCCAGTACATGAAGACAATACCTGCT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-T
* ** * *
58175065 T-TCTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTGT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * *** *
58175109 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATTTGCTT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG--T
* * * *
58175155 TTTCCTTCGATC-AGCTTCGCCACCAGTATGGGAAGGCAAGATCTAT
1 TAT-CTTTGATCTA-CTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * ***
58175201 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* *
58175245 TTTCTTTTATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * * * * * *
58175289 TATATTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTG
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
58175333 CTACTTTTCA
Statistics
Matches: 237, Mismatches: 65, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
44 123 0.52
45 76 0.32
46 9 0.04
47 11 0.05
48 18 0.08
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (45 bp):
TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
Found at i:58175204 original size:92 final size:90
Alignment explanation
Indices: 58174977--58175287 Score: 432
Period size: 89 Copynumber: 3.5 Consensus size: 90
58174967 AAGACTTGTA
* * *
58174977 TCTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTT-TCTTCGATCTACTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTA-TTATCTTTGATCTACTTCACGC
* *
58175041 CAGTACATGAAGACAATACCTGC-TT
65 CAGTACATGAAGACAAGATCTGCTTT
** * * *
58175066 TCTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
*
58175131 AGTACATGAAGACAAGATTTGCTTTT
66 AGTACATGAAGACAAGATCTGC-TTT
*
58175157 TCCTTCGATC-AGCTTCGCCACCAGTATGGGAAGGCAAGATCTATTATCTTTGATCTACTTCACG
1 T-CTTCGATCTA-CTTCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACG
58175221 CCAGTACATGAAGACAAGATCTG-TTT
64 CCAGTACATGAAGACAAGATCTGCTTT
**
58175247 TCTTTTATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
58175288 GTATATTCGA
Statistics
Matches: 195, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
88 2 0.01
89 108 0.55
90 5 0.03
91 3 0.02
92 77 0.39
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (90 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTTT
Found at i:58175325 original size:181 final size:181
Alignment explanation
Indices: 58174978--58175334 Score: 459
Period size: 181 Copynumber: 2.0 Consensus size: 181
58174968 AGACTTGTAT
58174978 CTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA
1 CTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA
* ** * *
58175043 GTACATGAAGACAATACCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTG
66 GTACATGAAGACAAGACCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
* * * * * * *
58175108 TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGCTTTTTC
131 TTATATTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTTTTTC
* * * *
58175159 CTTCGATC-AGCTTCGCCACCAGTATGGGAAGGCAAGATCTA-TTATCTTTGATCTACTTCACGC
1 CTTCGATCTA-CTTCACCACCAGTAGGGGAAGACAAGATCTACTT-TCTTCGATCTACTTCACGC
* * **
58175222 CAGTACATGAAGACAAGATCTGTTTTCTTTTATCTACTTCGCCACCAGTATGGGAAGACAAGATC
64 CAGTACATGAAGACAAGACCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
* * *
58175287 TG-TATATTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTGCT
129 TGTTATATTCGATCCACTTCAC-ACCAATACAGGAAGACAAGATCTGCT
58175335 ACTTTTCAAC
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
180 18 0.12
181 132 0.88
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (181 bp):
CTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA
GTACATGAAGACAAGACCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
TTATATTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTTTTTC
Found at i:58183441 original size:20 final size:20
Alignment explanation
Indices: 58183416--58183455 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
58183406 TAAAGGTCTT
58183416 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
58183436 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
58183456 ATGAGGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:58187270 original size:16 final size:17
Alignment explanation
Indices: 58187249--58187281 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
58187239 TAAATACGTA
58187249 TATATAAAATAT-AAGG
1 TATATAAAATATGAAGG
58187265 TATATAAAATATGAAGG
1 TATATAAAATATGAAGG
58187282 ATAAAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (17 bp):
TATATAAAATATGAAGG
Found at i:58190476 original size:30 final size:30
Alignment explanation
Indices: 58190442--58190506 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
58190432 ACTTATTTTA
58190442 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
58190472 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
58190502 TTGTT
1 TTGTT
58190507 TGTTAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:58190649 original size:13 final size:12
Alignment explanation
Indices: 58190617--58190653 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
58190607 TTGATGTATT
*
58190617 AAATATATTTAA
1 AAATATATATAA
58190629 AAAT-TATATAA
1 AAATATATATAA
58190640 AAATA-ATATAA
1 AAATATATATAA
58190651 AAA
1 AAA
58190654 ATTAATACGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATATATAA
Found at i:58195209 original size:38 final size:36
Alignment explanation
Indices: 58195118--58195295 Score: 142
Period size: 38 Copynumber: 4.8 Consensus size: 36
58195108 ATTTTTAATC
* * *
58195118 TTTTTGAAAATTTTATCAGATCATATTTTTTAAAATA
1 TTTTT-AAAAATTTATCAGTTCTTATTTTTTAAAATA
*
58195155 TGTTTTCAAAAA-TTATCAGTTCTTATTTTTTATTAATA
1 T-TTTT-AAAAATTTATCAGTTCTTATTTTTTA-AAATA
* * *
58195193 TTTTTATAAAATTTATCAATTTTTAAATTTTTAAAATA
1 TTTTTA-AAAATTTATCAGTTCTT-ATTTTTTAAAATA
* * * * * *
58195231 TTTTTTAGAATTTTTTAGTTTTTATTTTTTAAAACTC
1 TTTTTAAAAATTTATCAGTTCTTATTTTTTAAAA-TA
* *
58195268 TTTCTTCAAAATTTATCTGTTCTTATTT
1 TTT-TTAAAAATTTATCAGTTCTTATTT
58195296 GATTTTTAAT
Statistics
Matches: 112, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
36 11 0.10
37 44 0.39
38 50 0.45
39 7 0.06
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (36 bp):
TTTTTAAAAATTTATCAGTTCTTATTTTTTAAAATA
Found at i:58196284 original size:22 final size:22
Alignment explanation
Indices: 58196259--58196303 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
58196249 ATTCATGTTA
* *
58196259 TTTTTTGTATTTATATATCAAT
1 TTTTTTGTATCTATAAATCAAT
*
58196281 TTTTTTGTCTCTATAAATCAAT
1 TTTTTTGTATCTATAAATCAAT
58196303 T
1 T
58196304 ATTTATCTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTTGTATCTATAAATCAAT
Found at i:58197202 original size:35 final size:35
Alignment explanation
Indices: 58197127--58197207 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
58197117 TTTTCCCTAG
* *
58197127 ATAAAAGGTGTAAGTTATTTTAACATGTTTTTAAT
1 ATAAATGGTTTAAGTTATTTTAACATGTTTTTAAT
58197162 ATAAATGGTTTAAGTTATTTTAACATGTTTTTAAT
1 ATAAATGGTTTAAGTTATTTTAACATGTTTTTAAT
58197197 ATAAATGGTTT
1 ATAAATGGTTT
58197208 TTTTTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (35 bp):
ATAAATGGTTTAAGTTATTTTAACATGTTTTTAAT
Found at i:58197209 original size:16 final size:16
Alignment explanation
Indices: 58197153--58197209 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
58197143 ATTTTAACAT
58197153 GTTTTTAATATAAATG
1 GTTTTTAATATAAATG
* *
58197169 GTTTAAGTTATTTTAACAT-
1 GTTT---TTAATATAA-ATG
58197188 GTTTTTAATATAAATG
1 GTTTTTAATATAAATG
58197204 GTTTTT
1 GTTTTT
58197210 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 2 0.06
16 17 0.53
19 11 0.34
20 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (16 bp):
GTTTTTAATATAAATG
Found at i:58200128 original size:54 final size:53
Alignment explanation
Indices: 58199964--58200147 Score: 194
Period size: 54 Copynumber: 3.5 Consensus size: 53
58199954 GCCGGCCATG
* *
58199964 GGGTGTCCAAAACCT-A-TTTTTTAAAAATTGATAAAAGGGGTGTT-GGTCATC
1 GGGTGTCCAAAACCTAATTTTTTTAAAAATTGATAAAAGGGGTGTTAGCT-ATA
* ** ** * *
58200015 GGGTGTCCAAAACCCAATTTTCTTTTTAAATTGATAAAAGGGGTGCCAGCCATG
1 GGGTGTCCAAAACCTAATTTT-TTTAAAAATTGATAAAAGGGGTGTTAGCTATA
*
58200069 GGGTGTTCAAAACCTAATTTTTTTAAAAAATTGATAAAAGGGGTGTTAGCTATA
1 GGGTGTCCAAAACCTAATTTTTTT-AAAAATTGATAAAAGGGGTGTTAGCTATA
* * *
58200123 AGGTGTCTAAAATCTAAATTTTTTT
1 GGGTGTCCAAAACCT-AATTTTTTT
58200148 TAATCTGATA
Statistics
Matches: 107, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
51 14 0.13
52 1 0.01
53 6 0.06
54 76 0.71
55 10 0.09
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (53 bp):
GGGTGTCCAAAACCTAATTTTTTTAAAAATTGATAAAAGGGGTGTTAGCTATA
Found at i:58211487 original size:23 final size:22
Alignment explanation
Indices: 58211436--58211487 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
58211426 CCTCGTCTTT
*
58211436 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
58211458 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
58211481 TTCTTTT
1 TTCTTTT
58211488 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:58211496 original size:12 final size:12
Alignment explanation
Indices: 58211445--58211499 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
58211435 TTTCTTTTGT
58211445 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
58211458 -TCATTTTC-TC
1 TTCTTTTTCAAC
58211468 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
58211481 TTCTTTTTCAAT
1 TTCTTTTTCAAC
58211493 TTCTTTT
1 TTCTTTT
58211500 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:58211506 original size:17 final size:18
Alignment explanation
Indices: 58211481--58211518 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
58211471 TTTCTTCAAC
* *
58211481 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
58211498 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
58211516 TTC
1 TTC
58211519 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:58214795 original size:3 final size:3
Alignment explanation
Indices: 58214787--58214817 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
58214777 ACAGTAAAAC
58214787 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
58214818 AGAAGTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:58219143 original size:22 final size:20
Alignment explanation
Indices: 58219085--58219146 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 20
58219075 ATTAGGGACC
58219085 AATATTTTTTATACTTTTTTTT
1 AATATTTTTTA-A-TTTTTTTT
* *
58219107 CATATATTTTAAATTTGTTTTAT
1 AATAT-TTTTTAATTT-TTTT-T
58219130 AATATTTTTTAATTTTT
1 AATATTTTTTAATTTTT
58219147 AATACTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 5 0.15
22 18 0.55
23 10 0.30
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (20 bp):
AATATTTTTTAATTTTTTTT
Found at i:58219274 original size:18 final size:19
Alignment explanation
Indices: 58219245--58219282 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
58219235 ATTTTTAATA
58219245 ATTTTCTGTAATTTCTTAT
1 ATTTTCTGTAATTTCTTAT
*
58219264 ATTTT-TGTAATTTTTTAT
1 ATTTTCTGTAATTTCTTAT
58219282 A
1 A
58219283 ACTTTCTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (19 bp):
ATTTTCTGTAATTTCTTAT
Found at i:58221239 original size:27 final size:27
Alignment explanation
Indices: 58221201--58221279 Score: 158
Period size: 27 Copynumber: 2.9 Consensus size: 27
58221191 CTGCTAGATA
58221201 GTTCATCGGTACTGCTAACCGGCAATT
1 GTTCATCGGTACTGCTAACCGGCAATT
58221228 GTTCATCGGTACTGCTAACCGGCAATT
1 GTTCATCGGTACTGCTAACCGGCAATT
58221255 GTTCATCGGTACTGCTAACCGGCAA
1 GTTCATCGGTACTGCTAACCGGCAA
58221280 CTCATGGCGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (27 bp):
GTTCATCGGTACTGCTAACCGGCAATT
Found at i:58222103 original size:9 final size:9
Alignment explanation
Indices: 58222085--58222126 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
58222075 AGGGGCTGCA
58222085 CCATTGGCC
1 CCATTGGCC
*
58222094 CCATTAGCC
1 CCATTGGCC
58222103 CCATTGGCC
1 CCATTGGCC
* *
58222112 CCATCGACC
1 CCATTGGCC
58222121 CCATTG
1 CCATTG
58222127 ACCCTAGCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.17, C:0.45, G:0.17, T:0.21
Consensus pattern (9 bp):
CCATTGGCC
Found at i:58226515 original size:26 final size:28
Alignment explanation
Indices: 58226485--58226544 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
58226475 AATATATTTT
* * *
58226485 AATTAAT-TGATATACATTA-TTTATAA
1 AATTAATGTGATATAAAATATTTTAAAA
*
58226511 AATTAATGTTATATAAAATATTTTAAAA
1 AATTAATGTGATATAAAATATTTTAAAA
58226539 AATTAA
1 AATTAA
58226545 ATATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.25
27 9 0.32
28 12 0.43
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (28 bp):
AATTAATGTGATATAAAATATTTTAAAA
Found at i:58227605 original size:6 final size:6
Alignment explanation
Indices: 58227594--58227653 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
58227584 AACCATAAAA
* * * * *
58227594 AATAAC AATAAC AACAAC AACAAC AACAAC AACAAC -A-AA- AATAAT
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
58227639 AATAAC AATAAC AAT
1 AATAAC AATAAC AAT
58227654 GGAAGTTAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
4 3 0.06
5 3 0.06
6 43 0.88
ACGTcount: A:0.68, C:0.20, G:0.00, T:0.12
Consensus pattern (6 bp):
AATAAC
Found at i:58227611 original size:3 final size:3
Alignment explanation
Indices: 58227597--58227631 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
58227587 CATAAAAAAT
*
58227597 AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
58227632 AAATAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.29, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:58229523 original size:88 final size:88
Alignment explanation
Indices: 58229417--58229702 Score: 290
Period size: 88 Copynumber: 3.2 Consensus size: 88
58229407 CCACTGCAAC
* * *
58229417 TTCAAGGGGATAAGAATTGTGGCGTCGATCTGCTTCAATGTAATTTTAGGGAGAAGAGATTTGTA
1 TTCAAGGAGATAAGAATTGTGGCTTCGATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTA
* * *
58229482 GCTTCGATCTACTCCGCTGGAAT
66 GCTTCGATCTACTCCACTAGAAA
** * * * *
58229505 TTCAAGGAGATAAGAATTGGTAACTTC-AACTTGCTCCACTGCAACTTTAGGGAGATA-AGATTT
1 TTCAAGGAGATAAGAATT-GTGGCTTCGATC-TGCTCCAATGTAATTTTAGGGAGA-AGAGATTT
* ** * * * *
58229568 GCGTA-TTTTTATCCTGCTCTACTACAAC
63 --GTAGCTTCGAT-CTACTCCACTAGAAA
* * * *
58229596 TTCAGGGAGATAAGAATTGTGGCTTTGATCTGCTCCAATGTAATTTCAGGGATAAGAGATTTGTA
1 TTCAAGGAGATAAGAATTGTGGCTTCGATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTA
58229661 GCTTCGATCTACTCCACTAGAAA
66 GCTTCGATCTACTCCACTAGAAA
58229684 TTCAAGGAGATAAGAATTG
1 TTCAAGGAGATAAGAATTG
58229703 GTAACTTCAA
Statistics
Matches: 153, Mismatches: 36, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
88 51 0.33
89 36 0.24
90 35 0.23
91 31 0.20
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (88 bp):
TTCAAGGAGATAAGAATTGTGGCTTCGATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTA
GCTTCGATCTACTCCACTAGAAA
Found at i:58229577 original size:179 final size:178
Alignment explanation
Indices: 58229262--58229795 Score: 705
Period size: 179 Copynumber: 3.0 Consensus size: 178
58229252 AATTGGTGTT
* * * * * * * *
58229262 TCGATCCGCTCCAATGTAATTTCAGGGAGAAGAAACTTGTAGTTTTGATCTACCCCGCTGCAACT
1 TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAAT
** * * * *
58229327 TCAAATAGATAAGAATTGGTAATTTCAACCTGCTCCACTATAACTTCAGGGAGATAAGGTTTGTA
66 TCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-C
58229392 TATTTTTATCCTGCTCCACTGCAACTTCAAGGG-GATAAGAATTGTGGCG
130 TATTTTTATCCTGCTCCACTGCAACTTC-AGGGAGATAAGAATTGTGGCG
* * *
58229441 TCGATCTGCTTCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAATT
1 TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAAT
* * *
58229506 TCAAGGAGATAAGAATTGGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCG
66 TCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGC-
* * *
58229571 TATTTTTATCCTGCTCTACTACAACTTCAGGGAGATAAGAATTGTGGCT
130 TATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGCG
* * * *
58229620 TTGATCTGCTCCAATGTAATTTCAGGGATAAGAGATTTGTAGCTTCGATCTACTCCACTAGAAAT
1 TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAAT
* * * *
58229685 TCAAGGAGATAAGAATTGGTAACTTCAACCTGTTCCACTACAACTTCAGGGAAATGATATTTGCT
66 TCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCT
* *
58229750 ATCTTTAGT-CTACTCCACTGCAACTTCAGGGAGATAA-AACTTGTGG
131 ATTTTTA-TCCTGCTCCACTGCAACTTCAGGGAGATAAGAA-TTGTGG
58229796 TTTCACCGAT
Statistics
Matches: 311, Mismatches: 40, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
177 2 0.01
178 42 0.14
179 267 0.86
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (178 bp):
TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAAT
TCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCT
ATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGCG
Found at i:58229645 original size:44 final size:44
Alignment explanation
Indices: 58229402--58229786 Score: 203
Period size: 45 Copynumber: 8.6 Consensus size: 44
58229392 TATTTTTATC
* * *
58229402 CTGCTCCACTGCAACTTCAAGGG-GATAAGAATTGTGGCGTCGAT
1 CTGCTCCACTGCAATTTC-AGGGAGATAAGAATTGTAGCTTCGAT
* * * * *
58229446 CTGCTTCAATGTAATTTTAGGGAGA-AGAGATTTGTAGCTTCGAT
1 CTGCTCCACTGCAATTTCAGGGAGATA-AGAATTGTAGCTTCGAT
* * * * * *
58229490 CTACTCCGCTGGAATTTCAAGGAGATAAGAATTGGTAACTTC-AA
1 CTGCTCCACTGCAATTTCAGGGAGATAAGAATT-GTAGCTTCGAT
* * **
58229534 CTTGCTCCACTGCAACTTT-AGGGAGATAAGATTTGCGTA-TTTTTAT
1 C-TGCTCCACTGCAA-TTTCAGGGAGATAAGAATT--GTAGCTTCGAT
* * * * *
58229580 CCTGCTCTACTACAACTTCAGGGAGATAAGAATTGTGGCTTTGAT
1 -CTGCTCCACTGCAATTTCAGGGAGATAAGAATTGTAGCTTCGAT
* *
58229625 CTGCTCCAATGTAATTTCA-GG-GATAAGAGATTTGTAGCTTCGAT
1 CTGCTCCACTGCAATTTCAGGGAGATAAGA-A-TTGTAGCTTCGAT
* * * * * *
58229669 CTACTCCACTAG-AAATTCAAGGAGATAAGAATTGGTAACTTCAAC
1 CTGCTCCACT-GCAATTTCAGGGAGATAAGAATT-GTAGCTTCGAT
* * * * * * * * *
58229714 CTGTTCCACTACAACTTCAGGGAAATGATATTTGCTATCTT-TAGT
1 CTGCTCCACTGCAATTTCAGGGAGATAAGAATTG-TAGCTTCGA-T
* *
58229759 CTACTCCACTGCAACTTCAGGGAGATAA
1 CTGCTCCACTGCAATTTCAGGGAGATAA
58229787 AACTTGTGGT
Statistics
Matches: 257, Mismatches: 64, Indels: 39
0.71 0.18 0.11
Matches are distributed among these distances:
42 7 0.03
43 8 0.03
44 99 0.39
45 103 0.40
46 39 0.15
47 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAATTTCAGGGAGATAAGAATTGTAGCTTCGAT
Found at i:58231061 original size:15 final size:15
Alignment explanation
Indices: 58231041--58231069 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58231031 CCGGTAGAGG
58231041 TTTTTATTTTTTTGT
1 TTTTTATTTTTTTGT
58231056 TTTTTATTTTTTTG
1 TTTTTATTTTTTTG
58231070 CCTCCACTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (15 bp):
TTTTTATTTTTTTGT
Found at i:58233805 original size:12 final size:13
Alignment explanation
Indices: 58233780--58233847 Score: 63
Period size: 12 Copynumber: 5.4 Consensus size: 13
58233770 AAAATATGTA
*
58233780 AATAAATGA-AAT
1 AATAAATAACAAT
*
58233792 AATAAA-AACCAT
1 AATAAATAACAAT
58233804 AA-AAATAACAAT
1 AATAAATAACAAT
58233816 AATGACAATAACAAT
1 AAT-A-AATAACAAT
*
58233831 AAT-AATAATAAT
1 AATAAATAACAAT
58233843 AATAA
1 AATAA
58233848 TGAAAGTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
11 4 0.09
12 28 0.61
13 1 0.02
14 1 0.02
15 12 0.26
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.22
Consensus pattern (13 bp):
AATAAATAACAAT
Found at i:58233872 original size:4 final size:5
Alignment explanation
Indices: 58233822--58233889 Score: 57
Period size: 6 Copynumber: 12.4 Consensus size: 5
58233812 CAATAATGAC
*
58233822 AATAA CAATAA TAATAA TAATAA TAATGAA AGTCAA GAATAA AAT-A AATAA
1 AATAA -AATAA -AATAA -AATAA -AAT-AA AAT-AA -AATAA AATAA AATAA
58233873 AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AA
58233890 ACATCATTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.07
5 21 0.38
6 26 0.47
7 4 0.07
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:58233873 original size:9 final size:9
Alignment explanation
Indices: 58233859--58233888 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
58233849 GAAAGTCAAG
58233859 AATAAAATA
1 AATAAAATA
58233868 AATAAAATAA
1 AATAAAAT-A
58233878 AATAAAATA
1 AATAAAATA
58233887 AA
1 AA
58233889 AACATCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AATAAAATA
Found at i:58235340 original size:33 final size:30
Alignment explanation
Indices: 58235258--58235342 Score: 84
Period size: 33 Copynumber: 2.7 Consensus size: 30
58235248 GACTTATTAC
*
58235258 AAATTATATTTTAAAAA-TTAATATAATGAT
1 AAATAATA-TTTAAAAATTTAATATAATGAT
*
58235288 AAATAATTTTTAAACAATTTAATATAATGA-
1 AAATAATATTTAAA-AATTTAATATAATGAT
58235318 AACATGAGATATTTAAATAATTTAA
1 AA-AT-A-ATATTTAAA-AATTTAA
58235343 ATTTTTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 6 0.13
30 10 0.22
31 14 0.30
32 1 0.02
33 15 0.33
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (30 bp):
AAATAATATTTAAAAATTTAATATAATGAT
Found at i:58235971 original size:26 final size:27
Alignment explanation
Indices: 58235942--58235993 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
58235932 AGATCAGTTT
58235942 AGATCTTTGATTT-TTTAAAT-TTTAAA
1 AGAT-TTTGATTTATTTAAATATTTAAA
58235968 AGATTTTGATTTATTTAAATATTTAA
1 AGATTTTGATTTATTTAAATATTTAA
58235994 GAAATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 8 0.33
26 11 0.46
27 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (27 bp):
AGATTTTGATTTATTTAAATATTTAAA
Found at i:58242827 original size:16 final size:17
Alignment explanation
Indices: 58242776--58242830 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
58242766 CAATTAGTAT
58242776 TTATAAAAAATAATTTAA
1 TTATAAAAAATAATTT-A
*
58242794 TTATAAAATATAAAATTTA
1 TTATAAAA-A-ATAATTTA
*
58242813 TTATAAAACAT-ATTTA
1 TTATAAAAAATAATTTA
58242829 TT
1 TT
58242831 TTCTTTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.22
17 1 0.03
18 8 0.25
19 10 0.31
20 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATAAAAAATAATTTA
Found at i:58264088 original size:21 final size:21
Alignment explanation
Indices: 58264064--58264115 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 21
58264054 GAACTTTATA
58264064 TTCTTTTAAAAAGAATATAAT
1 TTCTTTTAAAAAGAATATAAT
*
58264085 TTCTTTTTCTTAAAAGAATATAAT
1 TTC--TTT-TAAAAAGAATATAAT
58264109 TTCTTTT
1 TTCTTTT
58264116 TCTTACTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 4 0.15
22 3 0.11
23 3 0.11
24 17 0.63
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.52
Consensus pattern (21 bp):
TTCTTTTAAAAAGAATATAAT
Found at i:58264102 original size:24 final size:24
Alignment explanation
Indices: 58264072--58264120 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
58264062 TATTCTTTTA
58264072 AAAAGAATATAATTTCTTTTTCTT
1 AAAAGAATATAATTTCTTTTTCTT
58264096 AAAAGAATATAATTTCTTTTTCTT
1 AAAAGAATATAATTTCTTTTTCTT
58264120 A
1 A
58264121 CTTTCCATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (24 bp):
AAAAGAATATAATTTCTTTTTCTT
Found at i:58265867 original size:32 final size:32
Alignment explanation
Indices: 58265826--58265890 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
58265816 ATTTCTAGGA
58265826 TTGTATGCAACTCCACTCAACTACGCAAGATC
1 TTGTATGCAACTCCACTCAACTACGCAAGATC
*
58265858 TTGTATGCAACTCCACTCAATTACGCAAGATC
1 TTGTATGCAACTCCACTCAACTACGCAAGATC
58265890 T
1 T
58265891 ACTCTTAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (32 bp):
TTGTATGCAACTCCACTCAACTACGCAAGATC
Found at i:58268147 original size:17 final size:17
Alignment explanation
Indices: 58268127--58268162 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
58268117 TAGAATTGGG
58268127 TTGAGAAAA-TAATTTAA
1 TTGAGAAAATTAA-TTAA
58268144 TTGAGAAAATTAATTAA
1 TTGAGAAAATTAATTAA
58268161 TT
1 TT
58268163 TAACTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:58271294 original size:25 final size:26
Alignment explanation
Indices: 58271239--58271296 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
58271229 TTTTCTTAGT
* *
58271239 CTTTTTGGCGTATTCTGTATGTTGTA
1 CTTTGTGGCGTATACTGTATGTTGTA
*
58271265 C-TTGTGGCGTATACTGTATGTTG-C
1 CTTTGTGGCGTATACTGTATGTTGTA
58271289 CTTTGTGG
1 CTTTGTGG
58271297 TACATCTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.10, C:0.14, G:0.28, T:0.48
Consensus pattern (26 bp):
CTTTGTGGCGTATACTGTATGTTGTA
Found at i:58273695 original size:25 final size:25
Alignment explanation
Indices: 58273667--58273749 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
58273657 GCACACTCTC
*
58273667 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
* * * **
58273692 GAGCCATGTAACAAGAAGCTTATCC
1 GAGCCATATAACAGGAAGCTCATGT
* * * *
58273717 GGGCTAAATAATAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
58273742 GAGCCATA
1 GAGCCATA
58273750 GTCGGGAAAC
Statistics
Matches: 40, Mismatches: 18, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:58273897 original size:26 final size:26
Alignment explanation
Indices: 58273782--58273920 Score: 94
Period size: 25 Copynumber: 5.6 Consensus size: 26
58273772 TAACAGGTAG
* *
58273782 CTCA-GAAGAGCCATTAATTAGGAAG
1 CTCACGAAGAGCCATTAATCAGGAAA
* * *
58273807 CTC-CGGATAGCCA-TATATCAGGAAG
1 CTCACGAAGAGCCATTA-ATCAGGAAA
* * * *
58273832 TTCAAG-TGAGCCA-T-ATCGGGAAA
1 CTCACGAAGAGCCATTAATCAGGAAA
58273855 CTC-CGAAGAGCCATTAATCAGGAAA
1 CTCACGAAGAGCCATTAATCAGGAAA
* * ** *
58273880 CTCACAAAGAGCCTTTAATTGGGAAG
1 CTCACGAAGAGCCATTAATCAGGAAA
58273906 CTCACGAAGAGCCAT
1 CTCACGAAGAGCCAT
58273921 ATAACGGGAC
Statistics
Matches: 87, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
22 1 0.01
23 15 0.17
24 3 0.03
25 37 0.43
26 31 0.36
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CTCACGAAGAGCCATTAATCAGGAAA
Found at i:58273929 original size:26 final size:26
Alignment explanation
Indices: 58273771--58273925 Score: 85
Period size: 25 Copynumber: 6.2 Consensus size: 26
58273761 CGTGCGAGAA
*
58273771 ATAACAGGTAGCTCA-GAAGAGCCAT
1 ATAACAGGAAGCTCACGAAGAGCCAT
* * *
58273796 -TAATTAGGAAGCTC-CGGATAGCCAT
1 ATAA-CAGGAAGCTCACGAAGAGCCAT
* * * *
58273821 ATATCAGGAAGTTCAAG-TGAGCCAT
1 ATAACAGGAAGCTCACGAAGAGCCAT
* *
58273846 AT--CGGGAAACTC-CGAAGAGCCAT
1 ATAACAGGAAGCTCACGAAGAGCCAT
* *
58273869 -TAATCAGGAAACTCACAAAGAGCC-T
1 ATAA-CAGGAAGCTCACGAAGAGCCAT
* **
58273894 TTAATTGGGAAGCTCACGAAGAGCCAT
1 ATAA-CAGGAAGCTCACGAAGAGCCAT
58273921 ATAAC
1 ATAAC
58273926 GGGACGTTCT
Statistics
Matches: 96, Mismatches: 23, Indels: 21
0.69 0.16 0.15
Matches are distributed among these distances:
22 2 0.02
23 14 0.15
24 3 0.03
25 42 0.44
26 31 0.32
27 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
ATAACAGGAAGCTCACGAAGAGCCAT
Found at i:58280809 original size:16 final size:18
Alignment explanation
Indices: 58280772--58280811 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
58280762 TTGATAACAT
58280772 ATAATATTTATAATTAAG
1 ATAATATTTATAATTAAG
58280790 ATAA-ATTTA-AATTCAA-
1 ATAATATTTATAATT-AAG
58280806 ATAATA
1 ATAATA
58280812 AAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
ATAATATTTATAATTAAG
Found at i:58284779 original size:2 final size:2
Alignment explanation
Indices: 58284772--58284804 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
58284762 GTATTCTGTT
58284772 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58284805 TTGTGTCGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58286367 original size:6 final size:6
Alignment explanation
Indices: 58286358--58286392 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
58286348 AAAAATAAAA
* *
58286358 ATTAAT ATTAAT ATTAAT ATTAAC ATTAAC ATTAA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAA
58286393 GCTTGATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (6 bp):
ATTAAT
Found at i:58288348 original size:24 final size:24
Alignment explanation
Indices: 58288320--58288371 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
58288310 TTAGTAAATC
*
58288320 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
58288344 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
58288368 AAAT
1 AAAT
58288372 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:58302211 original size:3 final size:3
Alignment explanation
Indices: 58302203--58302263 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
58302193 TAACATTAAA
* * *
58302203 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT GAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
58302251 AAT AA- AA- AAT AAT
1 AAT AAT AAT AAT AAT
58302264 GGAGCTATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 4 0.08
3 49 0.92
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:58304055 original size:36 final size:36
Alignment explanation
Indices: 58304008--58304078 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
58303998 CCATGATGTG
*
58304008 TAAGGTGGCTTGTGTTGGTCTATGTTTTTTTGTTGA
1 TAAGGTGGCTTGTGTTGGTCTATGTTTTTTCGTTGA
58304044 TAAGGTGGCTTGTGTTGGTCTATGTTTTTTCGTTG
1 TAAGGTGGCTTGTGTTGGTCTATGTTTTTTCGTTG
58304079 CTATAAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.10, C:0.07, G:0.31, T:0.52
Consensus pattern (36 bp):
TAAGGTGGCTTGTGTTGGTCTATGTTTTTTCGTTGA
Found at i:58313499 original size:2 final size:2
Alignment explanation
Indices: 58313492--58313535 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
58313482 ATTTTTCCCG
58313492 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
58313534 CT
1 CT
58313536 GCCTCTTCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:58314319 original size:102 final size:102
Alignment explanation
Indices: 58314126--58314320 Score: 236
Period size: 102 Copynumber: 1.9 Consensus size: 102
58314116 ATTATATAAC
* * * ** *
58314126 TCCATATTTATTATTTTGTTTATATCAATAAAATAATTATTAATTAAAAATATTTTTAACATATT
1 TCCATATTTATTATTTTATTTATATAAATAAAAGAATTATTAATTAAAAATATAATTAACATAAT
* *
58314191 AACATAATGAAAGATAGATATATTTTTATTGTACAAT
66 AAAATAATGAAAGATACATATATTTTTATTGTACAAT
* *
58314228 TCCATATTTATTGTTTTATTTATATAAATAAAAGAATTATTAATTAAATATATAAATTAA-A-AA
1 TCCATATTTATTATTTTATTTATATAAATAAAAGAATTATTAATTAAAAATAT-AATTAACATAA
58314291 TAAAATAACTTGAAAG-TAACATAT-TTTTTA
65 TAAAATAA--TGAAAGAT-ACATATATTTTTA
58314321 ATTAAAAATA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
101 8 0.10
102 56 0.71
103 15 0.19
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (102 bp):
TCCATATTTATTATTTTATTTATATAAATAAAAGAATTATTAATTAAAAATATAATTAACATAAT
AAAATAATGAAAGATACATATATTTTTATTGTACAAT
Found at i:58315774 original size:23 final size:23
Alignment explanation
Indices: 58315747--58315802 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
58315737 AAACTAATCC
58315747 TCTCTCAAATTTCC-TCTC-AATT
1 TCTCTCAAATTTCCTTC-CAAATT
58315769 TGCTCTCAAA-TTCCTTCCAAATT
1 T-CTCTCAAATTTCCTTCCAAATT
58315792 TCTCTCAAATT
1 TCTCTCAAATT
58315803 CATATTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.25, C:0.30, G:0.02, T:0.43
Consensus pattern (23 bp):
TCTCTCAAATTTCCTTCCAAATT
Found at i:58315796 original size:22 final size:21
Alignment explanation
Indices: 58315747--58315803 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
58315737 AAACTAATCC
58315747 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAA-TTCCTCTCAATT
58315769 TGCTCTCAAATTCCT-TCCAAATT
1 T-CTCTCAAATTCCTCT-C-AATT
58315792 TCTCTCAAATTC
1 TCTCTCAAATTC
58315804 ATATTTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 1 0.03
22 18 0.56
23 13 0.41
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.42
Consensus pattern (21 bp):
TCTCTCAAATTCCTCTCAATT
Found at i:58315800 original size:11 final size:11
Alignment explanation
Indices: 58315747--58315802 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
58315737 AAACTAATCC
58315747 TCTCTCAAATT
1 TCTCTCAAATT
58315758 TCCTCTC-AATT
1 T-CTCTCAAATT
58315769 TGCTCTCAAATT
1 T-CTCTCAAATT
*
58315781 CCT-TCCAAATT
1 TCTCT-CAAATT
58315792 TCTCTCAAATT
1 TCTCTCAAATT
58315803 CATATTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 1 0.03
11 27 0.71
12 10 0.26
ACGTcount: A:0.25, C:0.30, G:0.02, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:58315860 original size:51 final size:51
Alignment explanation
Indices: 58315761--58315860 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
58315751 TCAAATTTCC
*
58315761 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTCAAATTCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAA
* * * *
58315812 TCTCAATTTGCTCTCAAGTTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTTC-CAAATTTCTCTCAAATCCATATTT
58315861 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAA
Found at i:58317014 original size:7 final size:7
Alignment explanation
Indices: 58317002--58317027 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
58316992 TAGTTGATTG
58317002 GTATTTA
1 GTATTTA
58317009 GTATTTA
1 GTATTTA
58317016 GTATTTA
1 GTATTTA
58317023 GTATT
1 GTATT
58317028 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:58317704 original size:18 final size:18
Alignment explanation
Indices: 58317677--58317716 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
58317667 CAAGTACGTT
* *
58317677 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
58317695 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
58317713 TCCT
1 TCCT
58317717 TTTCCGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:58318296 original size:21 final size:21
Alignment explanation
Indices: 58318272--58318393 Score: 122
Period size: 21 Copynumber: 5.8 Consensus size: 21
58318262 ACTCTAACTC
*
58318272 TAACCCTTAACTTAAAAATCG
1 TAACCCTTAACTTAAAAACCG
*
58318293 TAACCCTTAAATTAAAAACTC-
1 TAACCCTTAACTTAAAAAC-CG
* *
58318314 TAAGCCCTTAACTTTAAAACTG
1 TAA-CCCTTAACTTAAAAACCG
* *
58318336 TAACCCTTAA-ATAACAAACCC
1 TAACCCTTAACTTAA-AAACCG
* * *
58318357 TAACACTTAAGTTAAAAACCT
1 TAACCCTTAACTTAAAAACCG
58318378 TAACCCTTAACTTAAA
1 TAACCCTTAACTTAAA
58318394 TATAATTTTA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
20 2 0.02
21 59 0.72
22 21 0.26
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (21 bp):
TAACCCTTAACTTAAAAACCG
Found at i:58318325 original size:43 final size:41
Alignment explanation
Indices: 58318267--58318393 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 41
58318257 TAAAAACTCT
58318267 AACTCTAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAA
1 AACTCTAACCCTTAACTTAAAAA-CGTAACCCTTAAATTAAA
*
58318309 AACTCTAAGCCCTTAACTTTAAAACTGTAACCCTTAAA-TAACA
1 AACTCTAA-CCCTTAACTTAAAAAC-GTAACCCTTAAATTAA-A
* * * * *
58318352 AACCCTAACACTTAAGTTAAAAACCTTAACCCTTAACTTAAA
1 AACTCTAACCCTTAACTTAAAAA-CGTAACCCTTAAATTAAA
58318394 TATAATTTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
42 35 0.48
43 38 0.52
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (41 bp):
AACTCTAACCCTTAACTTAAAAACGTAACCCTTAAATTAAA
Found at i:58318366 original size:64 final size:63
Alignment explanation
Indices: 58318267--58318390 Score: 153
Period size: 64 Copynumber: 2.0 Consensus size: 63
58318257 TAAAAACTCT
* * * *
58318267 AACTCTAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAAAA-CTCTAAGCCCTTAACTTTAA
1 AACTCTAACCCTTAACATAAAAACCCTAACACTTAAATTAAAAACCT-TAA-CCCTTAACTTTAA
* *
58318331 AACTGTAACCCTTAA-ATAACAAACCCTAACACTTAAGTTAAAAACCTTAACCCTTAACTT
1 AACTCTAACCCTTAACATAA-AAACCCTAACACTTAAATTAAAAACCTTAACCCTTAACTT
58318391 AAATATAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
63 13 0.25
64 37 0.71
65 2 0.04
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (63 bp):
AACTCTAACCCTTAACATAAAAACCCTAACACTTAAATTAAAAACCTTAACCCTTAACTTTAA
Found at i:58321886 original size:125 final size:124
Alignment explanation
Indices: 58321578--58322018 Score: 636
Period size: 125 Copynumber: 3.5 Consensus size: 124
58321568 CCCAAACATG
*
58321578 CTACTGTAGCAAAAGCACGTTCACG-GAGGCGCGATTTCACAAATTCTTCTCAAATAGCATACTG
1 CTACTGTAGCAAAAGCGCGTTCACGAG-GGCGCGATTTCACAAATTCTTCTCAAATAGCATACTG
* * *
58321642 CTAGAAGTGTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * *
58321702 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATACTGC
* *
58321767 TTGAAGCGTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* **
58321827 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTACTCATAA-AGCATTTTG
1 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATACTG
58321891 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * * * *
58321952 CTACTATAGCAAAAGCGCGTACACGTGGGCGCGACTTCAGAAATCCTTCT-AATAAAGCATATTG
1 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAA-ATAGCATACTG
58322016 CTT
65 CTT
58322019 TAATTTTATC
Statistics
Matches: 287, Mismatches: 24, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
123 1 0.00
124 106 0.37
125 138 0.48
126 42 0.15
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATACTGC
TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:58322840 original size:73 final size:72
Alignment explanation
Indices: 58322698--58322849 Score: 200
Period size: 73 Copynumber: 2.1 Consensus size: 72
58322688 TTAGCGGTAT
* * *
58322698 TTTTTAA-AAAGCACCGCAAAAAACCTAAGCCCAACAACGCCATTTTCTAAGCTTTTGGGGATTT
1 TTTTTAAGAAAGCACCGCAAAAAACCTAAGCCCAAAAACACCATTTTCTAAGCTTTCGGGGATTT
58322762 AGCGGCG
66 AGCGGCG
* * * * *
58322769 TTTTTAAGAAAGCGCTGCAAAAAACCTAAG-CCAAAATGACACCGTTTTGTGAGCTTTCGGGGAT
1 TTTTTAAGAAAGCACCGCAAAAAACCTAAGCCCAAAA--ACACCATTTTCTAAGCTTTCGGGGAT
58322833 TTAGCGGCG
64 TTAGCGGCG
58322842 TTTTTAAG
1 TTTTTAAG
58322850 GAATCGCCGC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
71 12 0.17
72 20 0.29
73 38 0.54
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (72 bp):
TTTTTAAGAAAGCACCGCAAAAAACCTAAGCCCAAAAACACCATTTTCTAAGCTTTCGGGGATTT
AGCGGCG
Found at i:58323086 original size:114 final size:114
Alignment explanation
Indices: 58322759--58323073 Score: 490
Period size: 113 Copynumber: 2.8 Consensus size: 114
58322749 CTTTTGGGGA
* * * *
58322759 TTTAGCGGCGTTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAATGACACCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
58322824 TTCGGGGATTTAGCGGCGTTTTTAAGGAATCGCCGCTAATGCTCAAGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGC
* * * * *
58322873 TTTAGCGGCG-TTTTGGGAAAGCGCCGCAAAAAACCTAAGCCAAAACAATGCCCTTTTGTAAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
58322937 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGC
* *
58322986 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACTTAAGCCGAAAA-GACGCCGTTTTGTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AAAACGACGCCGTTTTGTGAGC
58323050 TTTCGGGGATTTAGCGGCGTTTTT
65 TTTCGGGGATTTAGCGGCGTTTTT
58323074 TATAAAGCGC
Statistics
Matches: 181, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
113 102 0.56
114 75 0.41
115 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGC
Found at i:58323110 original size:73 final size:73
Alignment explanation
Indices: 58322986--58323146 Score: 270
Period size: 73 Copynumber: 2.2 Consensus size: 73
58322976 TGCTCAGGGC
*
58322986 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACTTAAGCCGAAAAGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACCTAAGCCGAAAAGACGCCGTTTTGTGAGCT
58323051 TTCGGGGA
66 TTCGGGGA
* * *
58323059 TTTAGCGGCGTTTTTTATAAAGCGCCGCAAATAACCTGAGCC-AAAACGACGCCGTTTTGTGAGC
1 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACCTAAGCCGAAAA-GACGCCGTTTTGTGAGC
58323123 TTTCGGGGA
65 TTTCGGGGA
58323132 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
58323147 AAGGAAGCGC
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
72 4 0.05
73 79 0.95
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACCTAAGCCGAAAAGACGCCGTTTTGTGAGCT
TTCGGGGA
Found at i:58323134 original size:187 final size:186
Alignment explanation
Indices: 58322873--58323285 Score: 621
Period size: 187 Copynumber: 2.2 Consensus size: 186
58322863 TGCTCAAGGC
** *
58322873 TTTAGCGGCGTTTTGGGAAAGCGCCGCAAAAAACCTAAGCCAAAACAATGCCCTTTTGTAAGCTT
1 TTTAGCGGCGTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCCTTTTGTAAGCTT
58322938 TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
* * * * *
58323003 TAAAGCGCCGCAAAAAACTTAAGCCGAAAA-GACGCCGTTTTGTGAGCTTTCGGGGA
131 GAAAGCGCAGCAAAAAACCTAAGCC-AAAACGACGCCGTTTTGTGAGCTTTAGAGGA
* * * * * *
58323059 TTTAGCGGCGTTTTTTATAAAGCGCCGCAAATAACCTGAGCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCG-TTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCCTTTTGTAAGCT
* *
58323124 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGTTAATGCTCAGGGCTTTAGTGGCGTTTTTG
65 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* *
58323189 GGAAAGCGCAGCAAAAAACCTAAGCCAAAACGGCGCCGTTTTGTGAGCTTTAGAGGA
130 AGAAAGCGCAGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCTTTAGAGGA
* *
58323246 TTTTGCGGCGTTTTTAGAAAGCGTCGCAAAAAACCTAAGC
1 TTTAGCGGCGTTTTTAGAAAGCGCCGCAAAAAACCTAAGC
58323286 GCTTTCGGGG
Statistics
Matches: 202, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
186 40 0.20
187 162 0.80
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (186 bp):
TTTAGCGGCGTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCCTTTTGTAAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
GAAAGCGCAGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCTTTAGAGGA
Found at i:58323535 original size:14 final size:14
Alignment explanation
Indices: 58323516--58323549 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
58323506 TATCACTATA
* *
58323516 GTTTAGGGTTTTTG
1 GTTTAGGGTATATG
58323530 GTTTAGGGTATATG
1 GTTTAGGGTATATG
58323544 GTTTAG
1 GTTTAG
58323550 AATTTAAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
GTTTAGGGTATATG
Found at i:58323599 original size:22 final size:21
Alignment explanation
Indices: 58323574--58323621 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
58323564 GTGTTACCAT
*
58323574 TTTAAGGTTTATAGATTATGGG
1 TTTAAGGGTTATAGATTAT-GG
* * *
58323596 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATAGATTATGG
58323617 TTTAA
1 TTTAA
58323622 AGACTGAGGT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATAGATTATGG
Done.